Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 119 of 132
Found at i:36355049 original size:45 final size:44
Alignment explanation
Indices: 36354998--36355123 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
36354988 AAAGTATCAA
* *
36354998 ATTAAAAAAAAAATCAAGTTCATGTATTAAATTAGATCTCAAAAC
1 ATTAAAAAAAAAATC-AGTTCAAGTATCAAATTAGATCTCAAAAC
*** *
36355043 ATTAAAAAAATGTTCAGTTTAAGTATCAAATTAGATCTCAAAAC
1 ATTAAAAAAAAAATCAGTTCAAGTATCAAATTAGATCTCAAAAC
*** *
36355087 ATTAAAAAAATGTTCAGTTTAAGTATCAAATTAGATC
1 ATTAAAAAAAAAATCAGTTCAAGTATCAAATTAGATC
36355124 ATAAAAAAGT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 63 0.84
45 12 0.16
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (44 bp):
ATTAAAAAAAAAATCAGTTCAAGTATCAAATTAGATCTCAAAAC
Found at i:36355074 original size:44 final size:44
Alignment explanation
Indices: 36355021--36355123 Score: 197
Period size: 44 Copynumber: 2.3 Consensus size: 44
36355011 TCAAGTTCAT
*
36355021 GTATTAAATTAGATCTCAAAACATTAAAAAAATGTTCAGTTTAA
1 GTATCAAATTAGATCTCAAAACATTAAAAAAATGTTCAGTTTAA
36355065 GTATCAAATTAGATCTCAAAACATTAAAAAAATGTTCAGTTTAA
1 GTATCAAATTAGATCTCAAAACATTAAAAAAATGTTCAGTTTAA
36355109 GTATCAAATTAGATC
1 GTATCAAATTAGATC
36355124 ATAAAAAAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (44 bp):
GTATCAAATTAGATCTCAAAACATTAAAAAAATGTTCAGTTTAA
Found at i:36357033 original size:24 final size:24
Alignment explanation
Indices: 36356989--36357048 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
36356979 ATCATTAATA
* **
36356989 AATAAACGAG-TCATAAATGAGTT
1 AATAAACGAGCTTATAAATGAGCC
36357012 AATAAACGAGCTTATAAATGAGCC
1 AATAAACGAGCTTATAAATGAGCC
*
36357036 AATAAACAAGCTT
1 AATAAACGAGCTT
36357049 GCTCGTGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (24 bp):
AATAAACGAGCTTATAAATGAGCC
Found at i:36362887 original size:22 final size:22
Alignment explanation
Indices: 36362856--36362898 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36362846 TTCCCCCTAC
*
36362856 TGTTGTTTTGCTAACATTTTGT
1 TGTTGCTTTGCTAACATTTTGT
**
36362878 TGTTGCTTTGCTGCCATTTTG
1 TGTTGCTTTGCTAACATTTTG
36362899 CTACTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.14, G:0.21, T:0.56
Consensus pattern (22 bp):
TGTTGCTTTGCTAACATTTTGT
Found at i:36365943 original size:44 final size:44
Alignment explanation
Indices: 36365858--36365948 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 44
36365848 GTGTTATTAG
*
36365858 TTAAATTAGAATATTTTAAATGTGTAATAATTATCATAATTTCTA
1 TTAAATTAGAATATTTTAAA-GTGTAATAATTATCACAATTTCTA
* * *
36365903 TTAAATTATAATTAATTTTAAA-TGT-ATAGTTATCACAATTTTTA
1 TTAAATTAGAA-T-ATTTTAAAGTGTAATAATTATCACAATTTCTA
36365947 TT
1 TT
36365949 TCACTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 18 0.45
45 13 0.32
46 1 0.03
47 8 0.20
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (44 bp):
TTAAATTAGAATATTTTAAAGTGTAATAATTATCACAATTTCTA
Found at i:36368714 original size:31 final size:31
Alignment explanation
Indices: 36368650--36368723 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
36368640 AATTTTTTAC
* ** *
36368650 TTTAAATTTATATTTTTTTATCCATTTTAATA
1 TTTAAATTTA-ATTATTAGATCCACTTTAATA
*
36368682 TTTAAATTTAATTATTAGATCCACTTTGATA
1 TTTAAATTTAATTATTAGATCCACTTTAATA
*
36368713 TTTGAATTTAA
1 TTTAAATTTAA
36368724 ATTTTGGACG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.72
32 10 0.28
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (31 bp):
TTTAAATTTAATTATTAGATCCACTTTAATA
Found at i:36371300 original size:17 final size:18
Alignment explanation
Indices: 36371278--36371312 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36371268 TATATAATTT
36371278 TATA-TTTAAATTTGATA
1 TATATTTTAAATTTGATA
*
36371295 TATATTTTTAATTTGATA
1 TATATTTTAAATTTGATA
36371313 CTTATGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TATATTTTAAATTTGATA
Found at i:36374021 original size:27 final size:27
Alignment explanation
Indices: 36373991--36374058 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
36373981 CGTTCCAGGT
* * *
36373991 TCGGGTCCCTTGGAAAGAGGGTTTATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
* *
36374018 TCGGGTCCGATCGAGAGAGGGTTCATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
*
36374045 TCGGGTCCCCTCGA
1 TCGGGTCCCATCGA
36374059 TAATGTTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.25
Consensus pattern (27 bp):
TCGGGTCCCATCGAAAGAGGGTTCATG
Found at i:36381611 original size:19 final size:19
Alignment explanation
Indices: 36381576--36381613 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36381566 AAAATTACAA
*
36381576 AAAAATAATTTTTAAAATT
1 AAAAATAATTTTAAAAATT
36381595 AAAAAT-ATTTATAAAAATT
1 AAAAATAATTT-TAAAAATT
36381614 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATAATTTTAAAAATT
Found at i:36385051 original size:15 final size:14
Alignment explanation
Indices: 36385032--36385058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36385022 CGTGACTTTT
36385032 TTTTTTAATATTTA
1 TTTTTTAATATTTA
36385046 TTTTTTAATATTT
1 TTTTTTAATATTT
36385059 TACTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:36385060 original size:15 final size:15
Alignment explanation
Indices: 36385028--36385060 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
36385018 GTAACGTGAC
36385028 TTTT-TTTTTTAATA
1 TTTTATTTTTTAATA
36385042 -TTTATTTTTTAATA
1 TTTTATTTTTTAATA
36385056 TTTTA
1 TTTTA
36385061 CTATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 10 0.59
15 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTAATA
Found at i:36391187 original size:13 final size:13
Alignment explanation
Indices: 36391169--36391226 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
36391159 AGTTTAGCAT
*
36391169 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
36391182 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
36391195 TG-TTTTAGAAAAG
1 TGCTTTT-GAAAAG
*
36391208 TGATTTTGAAAAG
1 TGCTTTTGAAAAG
*
36391221 TACTTT
1 TGCTTT
36391227 AAAAAAGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
12 4 0.11
13 30 0.79
14 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36391227 original size:26 final size:26
Alignment explanation
Indices: 36391179--36391234 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
36391169 TGCTTTTGAG
* ** *
36391179 AAGTGCTTTTAAAAAGTGTTTTAGAA
1 AAGTGATTTTAAAAAGTACTTTAAAA
*
36391205 AAGTGATTTTGAAAAGTACTTTAAAA
1 AAGTGATTTTAAAAAGTACTTTAAAA
36391231 AAGT
1 AAGT
36391235 TTGGTTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (26 bp):
AAGTGATTTTAAAAAGTACTTTAAAA
Found at i:36396090 original size:14 final size:14
Alignment explanation
Indices: 36396071--36396098 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36396061 ATCTAATACT
36396071 AATAGAATAGAAAA
1 AATAGAATAGAAAA
36396085 AATAGAATAGAAAA
1 AATAGAATAGAAAA
36396099 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:36398902 original size:17 final size:18
Alignment explanation
Indices: 36398882--36398916 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36398872 AAATTAATTG
*
36398882 TAAAAAG-TAAATAAAAT
1 TAAAAAGATAAAAAAAAT
36398899 TAAAAAGATAAAAAAAAT
1 TAAAAAGATAAAAAAAAT
36398917 GTATGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
TAAAAAGATAAAAAAAAT
Found at i:36398916 original size:23 final size:21
Alignment explanation
Indices: 36398864--36398916 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
36398854 TTTTCCTTAG
**
36398864 AAAAAATAAAATTAATTGTAA
1 AAAAAATAAAATTAAAAGTAA
36398885 AAAGTAAATAAAATTAAAAAGATAA
1 AAA--AAATAAAATT-AAAAG-TAA
36398910 AAAAAAT
1 AAAAAAT
36398917 GTATGATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
23 14 0.54
24 3 0.12
25 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAATTAAAAGTAA
Found at i:36407266 original size:12 final size:12
Alignment explanation
Indices: 36407249--36407279 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36407239 AAATGATATG
*
36407249 ATATATATATAC
1 ATATATACATAC
36407261 ATATATACATAC
1 ATATATACATAC
36407273 ATATATA
1 ATATATA
36407280 ACTCTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATACATAC
Found at i:36409902 original size:27 final size:27
Alignment explanation
Indices: 36409874--36409925 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36409864 AATTGGATTA
36409874 AAAATAAT-TTAATTAAAAAATTAATT
1 AAAATAATATTAATTAAAAAATTAATT
* * *
36409900 AAATTTATATTAATTAATAAATTAAT
1 AAAATAATATTAATTAAAAAATTAAT
36409926 ATTTTTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATAATATTAATTAAAAAATTAATT
Found at i:36409922 original size:18 final size:19
Alignment explanation
Indices: 36409892--36409928 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
36409882 TTAATTAAAA
*
36409892 AATTAATTAAATTTATATT
1 AATTAATTAAATTAATATT
36409911 AATTAA-TAAATTAATATT
1 AATTAATTAAATTAATATT
36409929 TTTTGAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAATTAAATTAATATT
Found at i:36414312 original size:27 final size:27
Alignment explanation
Indices: 36414231--36414314 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
36414221 CGTATGCAAC
36414231 TGCTGACGTGGCATATAAGACAAAATA
1 TGCTGACGTGGCATATAAGACAAAATA
* * * * * *
36414258 TGC-CATGTCAGCA-A-AAAATTAATTATA
1 TGCTGACGT-GGCATATAAGA-CAA-AATA
36414285 TGCTGACGTGGCATATAAGACAAAATA
1 TGCTGACGTGGCATATAAGACAAAATA
36414312 TGC
1 TGC
36414315 CACGTCAGCA
Statistics
Matches: 39, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 3 0.08
26 6 0.15
27 21 0.54
28 6 0.15
29 3 0.08
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (27 bp):
TGCTGACGTGGCATATAAGACAAAATA
Found at i:36421883 original size:21 final size:21
Alignment explanation
Indices: 36421826--36421885 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
36421816 ACTGCCCATC
36421826 TTCTGCTGCAATCCATTCATT
1 TTCTGCTGCAATCCATTCATT
* *
36421847 TTCAAGGCTTATCAATCCATTCATT
1 TTC--TGC-T-GCAATCCATTCATT
36421872 TTCTGCTGCAATCC
1 TTCTGCTGCAATCC
36421886 TCCCCATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 9 0.29
22 1 0.03
23 4 0.13
24 1 0.03
25 16 0.52
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (21 bp):
TTCTGCTGCAATCCATTCATT
Found at i:36427200 original size:12 final size:12
Alignment explanation
Indices: 36427183--36427209 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36427173 ATGTATGCTA
36427183 TAGGGGATGAGT
1 TAGGGGATGAGT
36427195 TAGGGGATGAGT
1 TAGGGGATGAGT
36427207 TAG
1 TAG
36427210 AGTCTAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.48, T:0.26
Consensus pattern (12 bp):
TAGGGGATGAGT
Found at i:36430471 original size:21 final size:21
Alignment explanation
Indices: 36430423--36430471 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
36430413 CTTATATTTT
*
36430423 AAAATATATTAATTATTATAAA
1 AAAAT-TATTAATTATGATAAA
36430445 AAAATTATT-ATTATGATAAA
1 AAAATTATTAATTATGATAAA
36430465 AATAATT
1 AA-AATT
36430472 TCTAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 8 0.32
22 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATTATTAATTATGATAAA
Found at i:36432250 original size:25 final size:25
Alignment explanation
Indices: 36432210--36432264 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
36432200 ATTATATACC
*
36432210 TTTT-ATGATATATTTTTATTAATT
1 TTTTAATGATATATTTTTATTAAAT
36432234 TTTTAATGAT-TATTTTTTATTAAAT
1 TTTTAATGATATA-TTTTTATTAAAT
36432259 TTTTAA
1 TTTTAA
36432265 ACATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTAATGATATATTTTTATTAAAT
Found at i:36432273 original size:25 final size:25
Alignment explanation
Indices: 36432222--36432274 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
36432212 TTATGATATA
* ** *
36432222 TTTTTATTAATTTTTTAATGATTAT
1 TTTTTATTAAATTTTTAAACATAAT
36432247 TTTTTATTAAATTTTTAAACATAAT
1 TTTTTATTAAATTTTTAAACATAAT
36432272 TTT
1 TTT
36432275 CAATAATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTATTAAATTTTTAAACATAAT
Found at i:36444844 original size:28 final size:27
Alignment explanation
Indices: 36444819--36444871 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36444809 AATTAAATCA
*
36444819 AATTTTATATTTTAAGAATTTAAAATAT
1 AATTTTAT-TATTAAGAATTTAAAATAT
**
36444847 AATTTTATTATTATTAATTTAAAAT
1 AATTTTATTATTAAGAATTTAAAAT
36444872 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
AATTTTATTATTAAGAATTTAAAATAT
Found at i:36446559 original size:27 final size:27
Alignment explanation
Indices: 36446525--36446578 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36446515 AGATCAAAAA
36446525 TTATCTTTACTTTCCTAAACATGAAAT
1 TTATCTTTACTTTCCTAAACATGAAAT
36446552 TTATCTTTACTTTCCTAAACATGAAAT
1 TTATCTTTACTTTCCTAAACATGAAAT
36446579 AAAACAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (27 bp):
TTATCTTTACTTTCCTAAACATGAAAT
Found at i:36447098 original size:16 final size:17
Alignment explanation
Indices: 36447077--36447110 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36447067 AATCAACATT
*
36447077 TAACTT-TTGAATTTGA
1 TAACTTATTCAATTTGA
36447093 TAACTTATTCAATTTGA
1 TAACTTATTCAATTTGA
36447110 T
1 T
36447111 TTATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
TAACTTATTCAATTTGA
Found at i:36449845 original size:22 final size:22
Alignment explanation
Indices: 36449820--36449861 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36449810 GACAATAGAG
* *
36449820 CAGAAACCGATCCGGTCCGGTT
1 CAGAAACCGAGCCGATCCGGTT
36449842 CAGAAACCGAGCCGATCCGG
1 CAGAAACCGAGCCGATCCGG
36449862 GGGAAGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.33, G:0.29, T:0.12
Consensus pattern (22 bp):
CAGAAACCGAGCCGATCCGGTT
Found at i:36454847 original size:28 final size:30
Alignment explanation
Indices: 36454801--36454857 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
36454791 ATATATAATT
* * *
36454801 AATTTTAATTTTTATAATATTA-AAATAAA
1 AATTTTAATATTTAAAATAATAGAAATAAA
36454830 AATTTT-ATATTTAAAATAATAGAAATAA
1 AATTTTAATATTTAAAATAATAGAAATAA
36454858 TATAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
AATTTTAATATTTAAAATAATAGAAATAAA
Found at i:36458949 original size:17 final size:17
Alignment explanation
Indices: 36458927--36458959 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36458917 ATATAAATTA
36458927 ATGTTTGATT-TTTAAAT
1 ATGTTT-ATTATTTAAAT
36458944 ATGTTTATTATTTAAA
1 ATGTTTATTATTTAAA
36458960 ACTTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
ATGTTTATTATTTAAAT
Found at i:36462339 original size:23 final size:24
Alignment explanation
Indices: 36462312--36462357 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
36462302 ATTTGAGAAA
*
36462312 TAATT-TTTCATTTAAACTCTGTT
1 TAATTGTTTCAATTAAACTCTGTT
36462335 TAATTGTTTCAATTAAACTCTGT
1 TAATTGTTTCAATTAAACTCTGT
36462358 CTGAGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (24 bp):
TAATTGTTTCAATTAAACTCTGTT
Found at i:36466517 original size:42 final size:42
Alignment explanation
Indices: 36466465--36466587 Score: 149
Period size: 42 Copynumber: 3.0 Consensus size: 42
36466455 TAATCCCACG
* * * *
36466465 CTCATTCCGAGTCATGATTCTTCCTTTAATCATATTCTCATT
1 CTCATCCCGAGACATGACTCTTCCTTTAATCATATCCTCATT
* * *
36466507 CTCATCCCGAGACATGAGTCTGCCTTTCATCATATCCTCATT
1 CTCATCCCGAGACATGACTCTTCCTTTAATCATATCCTCATT
* * *
36466549 CTGATCCTGAGACATGACTCTTCCTTAAAT-ATATCCTCA
1 CTCATCCCGAGACATGACTCTTCCTTTAATCATATCCTCA
36466588 CACTCGTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 9 0.13
42 60 0.87
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.37
Consensus pattern (42 bp):
CTCATCCCGAGACATGACTCTTCCTTTAATCATATCCTCATT
Found at i:36474413 original size:43 final size:42
Alignment explanation
Indices: 36474330--36474526 Score: 164
Period size: 43 Copynumber: 4.6 Consensus size: 42
36474320 TAAAGATAAT
* * ** *
36474330 GCCGCTATAGAACATGATCTTTAGCGACGCTATTTTCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCT-TTACCACAAAA
* * *
36474373 GCCGCTATAGAATAT-AGTCTTTAGCGGCGCTTCTCCCACAAAA
1 GCCGCTAAAGAACATGA-TCTTTAGCGGCGCTT-TACCACAAAA
* * * *
36474416 GCCACTAAAGAACATGATCTTTAACGGCGATTTTACCACAAAT
1 GCCGCTAAAGAACATGATCTTTAGCGGCG-CTTTACCACAAAA
* * **
36474459 GCCGCTAAAGATCATGATCTTTAGCGGCACCTTTTTCACAAACA
1 GCCGCTAAAGAACATGATCTTTAGCGGC-GCTTTACCACAAA-A
* *
36474503 -CCGCTAAGGACCATGATCTTTAGC
1 GCCGCTAAAGAACATGATCTTTAGC
36474527 AGCGTTTTCC
Statistics
Matches: 126, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 121 0.96
44 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCACAAAA
Found at i:36474757 original size:40 final size:40
Alignment explanation
Indices: 36474713--36474805 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
36474703 TTTTTTTTAT
* *
36474713 AAACGTCGCTATTGCTTTATTTTTTGCGGCGTTTATGAAA
1 AAACGTCGCTATTGCTTTATTTTTTGAGACGTTTATGAAA
* * *
36474753 AAACGCCGTTATTGCTTTGTTTTTTGAGACGTTTATGAAA
1 AAACGTCGCTATTGCTTTATTTTTTGAGACGTTTATGAAA
*
36474793 AAACGTTGCTATT
1 AAACGTCGCTATT
36474806 ATTTTACCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (40 bp):
AAACGTCGCTATTGCTTTATTTTTTGAGACGTTTATGAAA
Found at i:36475461 original size:21 final size:21
Alignment explanation
Indices: 36475423--36475462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36475413 ATAATTTTAA
* **
36475423 AAAAATTAAAATTCATTAATC
1 AAAAATAAAAATAAATTAATC
36475444 AAAAATAAAAATAAATTAA
1 AAAAATAAAAATAAATTAA
36475463 ACCTTTCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATAAAAATAAATTAATC
Found at i:36475746 original size:10 final size:10
Alignment explanation
Indices: 36475733--36475808 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
36475723 TAAAAAGCGT
36475733 AAAATTATTA
1 AAAATTATTA
*
36475743 AAAATGATGT-
1 AAAATTAT-TA
**
36475753 AATCTTATTA
1 AAAATTATTA
36475763 AAATATT-TTA
1 AAA-ATTATTA
*
36475773 AAAA-TATGA
1 AAAATTATTA
36475782 ATAAATTATTA
1 A-AAATTATTA
*
36475793 AAAATTATGA
1 AAAATTATTA
36475803 AAAATT
1 AAAATT
36475809 TATTTTTTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.02
9 5 0.10
10 37 0.73
11 8 0.16
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:36475811 original size:21 final size:20
Alignment explanation
Indices: 36475770--36475812 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
36475760 TTAAAATATT
36475770 TTAAAAATATGAATAAA-TTA
1 TTAAAAATATGAA-AAATTTA
36475790 TTAAAAATTATGAAAAATTTA
1 TTAAAAA-TATGAAAAATTTA
36475811 TT
1 TT
36475813 TTTTACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTAAAAATATGAAAAATTTA
Found at i:36475934 original size:30 final size:29
Alignment explanation
Indices: 36475886--36475944 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
36475876 TTATAACAAT
*
36475886 TTCTTATAACTTTTTAGTAATTTTTTAATA
1 TTCTTATAACTTTCTAGTAA-TTTTTAATA
36475916 TTCTCTATAA-TTTCTAGTAATTTTTAATA
1 TTCT-TATAACTTTCTAGTAATTTTTAATA
36475945 ATATTAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.33
30 13 0.48
31 5 0.19
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (29 bp):
TTCTTATAACTTTCTAGTAATTTTTAATA
Found at i:36478166 original size:29 final size:28
Alignment explanation
Indices: 36478134--36478210 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
36478124 GAAGGTTTGG
36478134 GGGTAAAATGGTAATTTTTGGTGAAA-TCA
1 GGGTAAAATGGTAATTTTT-G-GAAAGTCA
**
36478163 GGGTCAAAAATGG-AA-TTTTGGAAAGTTGG
1 GGGT--AAAATGGTAATTTTTGGAAAG-TCA
36478192 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
36478211 AGAAGTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
27 11 0.28
28 3 0.08
29 17 0.43
30 2 0.05
31 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGAAAGTCA
Found at i:36478216 original size:28 final size:31
Alignment explanation
Indices: 36478163--36478248 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 31
36478153 GGTGAAATCA
*
36478163 GGGTCAAAAATGG-AA-TTTTGGAAAG-TTGG
1 GGGTC-AAAATGGTAATTTTTAGAAAGTTTGG
*
36478192 GGGT-AAAATGGTAATTTTTAG-AAGTTTTG
1 GGGTCAAAATGGTAATTTTTAGAAAGTTTGG
* *
36478221 GGGTCAAAAT-GTAATTTTTGGATAGTTT
1 GGGTCAAAATGGTAATTTTTAGAAAGTTT
36478249 AGGGACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
27 7 0.15
28 5 0.10
29 26 0.54
30 10 0.21
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.37
Consensus pattern (31 bp):
GGGTCAAAATGGTAATTTTTAGAAAGTTTGG
Found at i:36478225 original size:58 final size:57
Alignment explanation
Indices: 36478080--36478247 Score: 146
Period size: 58 Copynumber: 2.9 Consensus size: 57
36478070 TCTCGGGAAA
* * * * *
36478080 AAAAT-GTAATTTTGGGAAAATTTGGGGTTAAAAATAGG-ATATTGGAAGGTTTGGGGGT
1 AAAATGGTAATTTT-TGAGAATTTGGGGTCAAAAAT-GGAATTTTGGAAAG-TTGGGGGT
* * **
36478138 AAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTGGGGGT
1 AAAATGGTAATTTTT-GAGAATTTGGGGTCAAAAATGGAATTTTGGAAAGTTGGGGGT
* *
36478196 AAAATGGTAATTTTT-AGAAGTTTTGGGGTC-AAAATGTAATTTTTGGATAGTT
1 AAAATGGTAATTTTTGAGAA--TTTGGGGTCAAAAATGGAA-TTTTGGAAAGTT
36478248 TAGGGACTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
56 3 0.03
57 8 0.09
58 47 0.53
59 31 0.35
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (57 bp):
AAAATGGTAATTTTTGAGAATTTGGGGTCAAAAATGGAATTTTGGAAAGTTGGGGGT
Found at i:36480156 original size:18 final size:18
Alignment explanation
Indices: 36480133--36480167 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36480123 TGGGCCTATA
36480133 TTTTGTAATTGGACTTTC
1 TTTTGTAATTGGACTTTC
36480151 TTTTGTAATTGGACTTT
1 TTTTGTAATTGGACTTT
36480168 TTAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (18 bp):
TTTTGTAATTGGACTTTC
Found at i:36480949 original size:86 final size:86
Alignment explanation
Indices: 36480802--36480996 Score: 255
Period size: 86 Copynumber: 2.3 Consensus size: 86
36480792 AGTTGGTATT
* * * * *
36480802 CTTCTTTGTATCTTATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCGCTTCTCTAGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATGACCACCTCGCTTGTTTTAATTCACTTCTCTAGATCTCCT
*
36480867 TAAGAAGACGAATCTAGTCCA
66 CAAGAAGACGAATCTAGTCCA
* *
36480888 CTTCTCTGTATCTCATCAGGAAGATGACCACCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATGACCACCTCGCTTGTTTTAATTCACTTCTCTAGATCTCCT
* * * *
36480953 CAGGAAGACGAATTTGGTCTA
66 CAAGAAGACGAATCTAGTCCA
* * *
36480974 CTTCTCTATGTCTCATTAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
36480997 CTAACCTTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (86 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCACCTCGCTTGTTTTAATTCACTTCTCTAGATCTCCT
CAAGAAGACGAATCTAGTCCA
Found at i:36481151 original size:286 final size:286
Alignment explanation
Indices: 36480639--36481196 Score: 893
Period size: 286 Copynumber: 2.0 Consensus size: 286
36480629 TGCAATCATC
* *
36480639 TGTTTTAATTCGCTTATCTGGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCTGTGTCTCAT
1 TGTTTTAATTCACTTATCTGGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCTATGTCTCAT
* *
36480704 CAGGAAGTTAACCTTTTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAACTGGGTTTGA
66 CAGGAAGCTAACCTTTTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAACTGGGTTCGA
* * *
36480769 AGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTTTGTATCTTATCAGGAAGATGACCGCC
131 AGATTTGCTCGCGTTGAGCGCTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCC
* *
36480834 TCGCTTGTTTTGATTCGCTTCTCTAGATCTCCTTAAGAAGACGAATCTAGTCCACTTCTCTGTAT
196 TCGCTTGTTTTAATTCACTTCTCTAGATCTCCTTAAGAAGACGAATCTAGTCCACTTCTCTGTAT
36480899 CTCATCAGGAAGATGACCACCTCGGT
261 CTCATCAGGAAGATGACCACCTCGGT
* * *
36480925 TGTTTTAATTCACTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCTATGTCTCAT
1 TGTTTTAATTCACTTATCTGGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCTATGTCTCAT
* * * *
36480990 TAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTTAGTGTCTCATCA-GAAAGCTGGGTTCG
66 CAGGAAGCTAACCTTTTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAA-CTGGGTTCG
*
36481054 AAGATTTGCTCGTGTTGAGCGCTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC
130 AAGATTTGCTCGCGTTGAGCGCTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC
* * * * * *
36481119 CTCGGTTGTTTTAATTCACTTCTCTGGATCTCCTTAGGAAGACGAATTTGGTCCACTTCTCTGTG
195 CTCGCTTGTTTTAATTCACTTCTCTAGATCTCCTTAAGAAGACGAATCTAGTCCACTTCTCTGTA
36481184 TCTCATCAGGAAG
260 TCTCATCAGGAAG
36481197 CTAACCTTTT
Statistics
Matches: 248, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
285 4 0.02
286 244 0.98
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (286 bp):
TGTTTTAATTCACTTATCTGGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCTATGTCTCAT
CAGGAAGCTAACCTTTTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAACTGGGTTCGA
AGATTTGCTCGCGTTGAGCGCTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCC
TCGCTTGTTTTAATTCACTTCTCTAGATCTCCTTAAGAAGACGAATCTAGTCCACTTCTCTGTAT
CTCATCAGGAAGATGACCACCTCGGT
Found at i:36481713 original size:200 final size:200
Alignment explanation
Indices: 36480888--36481714 Score: 1440
Period size: 200 Copynumber: 4.1 Consensus size: 200
36480878 ATCTAGTCCA
* *
36480888 CTTCTCTGTATCTCATCAGGAAGATGACCACCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
* * *
36480953 CAGGAAGACGAATTTGGTCTACTTCTCTATGTCTCATTAGGAAGCTAACCTTTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGA
* *
36481018 CCTGCTTCTTAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
36481083 GTATT
196 GTATT
*
36481088 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
*
36481153 TAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGA
* *
36481218 CCTACTTCTCAGTGTCTCATCAGGAAGCTGGATTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
36481283 GTATT
196 GTATT
*
36481288 CTTCTCTGTATCTCATCAGGAAGATTACCAG-CTTGGTTGTTTTAATTCACTTCTCTGGATCTCC
1 CTTCTCTGTATCTCATCAGGAAGATTACC-GCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCC
* *
36481352 TCAGGAAGACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCA
65 TCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCG
**
36481417 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTTTTCGTGTTGAGCGCTGAGTT
130 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTT
* *
36481482 GTTGTT
195 GGTATT
36481488 CTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
* * * *
36481553 CGGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATTAGGAAGCTAACTTTTTTATTACTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGA
36481618 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
36481683 GTATT
196 GTATT
36481688 CTTCTCTGTATCTCATCAGGAAGATTA
1 CTTCTCTGTATCTCATCAGGAAGATTA
36481715 TCTCCTTATC
Statistics
Matches: 594, Mismatches: 31, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 592 1.00
201 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (200 bp):
CTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTCCT
CAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGA
CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTG
GTATT
Found at i:36493965 original size:29 final size:28
Alignment explanation
Indices: 36493888--36494113 Score: 97
Period size: 29 Copynumber: 7.7 Consensus size: 28
36493878 TTTGACTCTC
* * *
36493888 GGGGGCAAAAATGTAATTTCGGGAAAATTT
1 GGGGGTAAAAATGTAATTT-TGG-AAGTTT
* *
36493918 AGGGTTAAAAATG-AGATTTTGGAAGGTTT
1 GGGGGTAAAAATGTA-ATTTTGGAA-GTTT
**
36493947 GGGGGT-AAAATGTTAATTTTTGGTAA-AAT
1 GGGGGTAAAAATG-TAA-TTTTGG-AAGTTT
* * *
36493976 CGAGGTCAAAAATGGAATTTTGGAAGATTT
1 GGGGGT-AAAAATGTAATTTTGGAAG-TTT
* * *
36494006 GGAGGT-AAAATGGTAATTTTTGGTGAA-ATC
1 GGGGGTAAAAAT-GTAA-TTTT-G-GAAGTTT
*
36494036 GGGGTTAAAAAT-TGAATTTTGGAAAGTTT
1 GGGGGTAAAAATGT-AATTTTGG-AAGTTT
*
36494065 AGGGGT-AAAATGGTAATGTTTGGAAGTTT
1 GGGGGTAAAAAT-GTAAT-TTTGGAAGTTT
* *
36494094 CGGGGTCAAAATGTAATTTT
1 GGGGGTAAAAATGTAATTTT
36494114 TAGATAGTTT
Statistics
Matches: 149, Mismatches: 25, Indels: 46
0.68 0.11 0.21
Matches are distributed among these distances:
27 1 0.01
28 26 0.17
29 54 0.36
30 51 0.34
31 14 0.09
32 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (28 bp):
GGGGGTAAAAATGTAATTTTGGAAGTTT
Found at i:36493965 original size:59 final size:60
Alignment explanation
Indices: 36493895--36494087 Score: 195
Period size: 59 Copynumber: 3.3 Consensus size: 60
36493885 CTCGGGGGCA
* *
36493895 AAAAT-GTAA-TTTCGGGAAAATTTAGGGTTAAAAATGAGATTTTGGAAGGTTTGGGGGT
1 AAAATGGTAATTTTTGGGAAAATTCAGGGTTAAAAATGAGATTTTGGAAGGTTTGGGGGT
* * * * *
36493953 AAAATGTTAATTTTTGGTAAAA-TC-GAGGTCAAAAATG-GAATTTTGGAAGATTTGGAGGT
1 AAAATGGTAATTTTTGGGAAAATTCAG-GGTTAAAAATGAG-ATTTTGGAAGGTTTGGGGGT
* * *
36494012 AAAATGGTAATTTTTGGTG-AAA-TCGGGGTTAAAAATTGA-ATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGG-GAAAATTCAGGGTTAAAAA-TGAGATTTTGGAAGGTTTGGGGGT
*
36494071 AAAATGGTAATGTTTGG
1 AAAATGGTAATTTTTGG
36494088 AAGTTTCGGG
Statistics
Matches: 112, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
58 7 0.06
59 93 0.83
60 12 0.11
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (60 bp):
AAAATGGTAATTTTTGGGAAAATTCAGGGTTAAAAATGAGATTTTGGAAGGTTTGGGGGT
Found at i:36493995 original size:30 final size:29
Alignment explanation
Indices: 36493961--36494055 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
36493951 GTAAAATGTT
36493961 AATTTTTGGTAAAATCGAGGTCAAAAATGG
1 AATTTTTGGTAAAATCGAGGT-AAAAATGG
* *
36493991 AA-TTTTGG-AAGATTTGGAGGT-AAAATGG
1 AATTTTTGGTAA-A-ATCGAGGTAAAAATGG
* * *
36494019 TAATTTTTGGTGAAATCGGGGTTAAAAATTG
1 -AATTTTTGGTAAAATCGAGG-TAAAAATGG
36494050 AATTTT
1 AATTTT
36494056 GGAAAGTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
28 9 0.18
29 13 0.25
30 22 0.43
31 7 0.14
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AATTTTTGGTAAAATCGAGGTAAAAATGG
Found at i:36494105 original size:30 final size:28
Alignment explanation
Indices: 36493933--36494113 Score: 106
Period size: 29 Copynumber: 6.2 Consensus size: 28
36493923 TAAAAATGAG
* *
36493933 ATTTTGGAAGGTTTGGGGGTAAAATGTTA
1 ATTTTGGAA-GTTTCGGGGTAAAATGGTA
** *
36493962 ATTTTTGGTAA-AATCGAGGTCAAAAATGG-A
1 A-TTTTGG-AAGTTTCGGGGT--AAAATGGTA
36493992 ATTTTGGAAGATTT-GGAGGTAAAATGGTA
1 ATTTTGGAAG-TTTCGG-GGTAAAATGGTA
* *
36494021 ATTTTTGGTGAA--ATCGGGGTTAAAAATTG-A
1 A-TTTT-G-GAAGTTTCGGGG-T-AAAATGGTA
*
36494051 ATTTTGGAAAGTTTAGGGGTAAAATGGTA
1 ATTTTGG-AAGTTTCGGGGTAAAATGGTA
36494080 ATGTTTGGAAGTTTCGGGGTCAAAAT-GTA
1 AT-TTTGGAAGTTTCGGGGT-AAAATGGTA
36494109 ATTTT
1 ATTTT
36494114 TAGATAGTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 41
0.68 0.08 0.24
Matches are distributed among these distances:
27 1 0.01
28 21 0.18
29 42 0.36
30 36 0.31
31 15 0.13
32 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.36
Consensus pattern (28 bp):
ATTTTGGAAGTTTCGGGGTAAAATGGTA
Found at i:36494123 original size:30 final size:29
Alignment explanation
Indices: 36494059--36494124 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
36494049 GAATTTTGGA
*
36494059 AAGTTTAGGGGTAAAATGGTAATGTTTGG
1 AAGTTTAGGGGTAAAATGGTAATGTTTAG
* *
36494088 AAGTTTCGGGGTCAAAAT-GTAATTTTTAG
1 AAGTTTAGGGGT-AAAATGGTAATGTTTAG
36494117 ATAGTTTA
1 A-AGTTTA
36494125 AGGACCTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (29 bp):
AAGTTTAGGGGTAAAATGGTAATGTTTAG
Found at i:36509936 original size:58 final size:59
Alignment explanation
Indices: 36509869--36510119 Score: 258
Period size: 58 Copynumber: 4.3 Consensus size: 59
36509859 TGATAAATGA
* * **
36509869 TGAAATCGGGGTGAAAAATGGGA-CTT-ATGGATACCCGGGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTCAAAAATGGAATCTTAAAAGAT--CCGGGGGCAAAATGGTAATTTTTGG
* * * * *
36509927 TGGAATCGGGGTCAAAATTGGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTCAAAAATGGAATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGG
* * * * * * *
36509986 TGAAATCGGGGTTAAAAATGGAAT-TTTAAAGATTCGAGGGTAAAATGGTAATTTTCGA
1 TGAAATCGGGGTCAAAAATGGAATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGG
* * * * *
36510044 TGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTTCGG
1 TGAAATCGGGGTCAAAAATGGAATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGG
*
36510103 TGAAATCGGGGTTAAAA
1 TGAAATCGGGGTCAAAA
36510120 TGTAATTTTG
Statistics
Matches: 170, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
58 89 0.52
59 77 0.45
60 4 0.02
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.29
Consensus pattern (59 bp):
TGAAATCGGGGTCAAAAATGGAATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGG
Found at i:36510008 original size:59 final size:59
Alignment explanation
Indices: 36509904--36510157 Score: 358
Period size: 58 Copynumber: 4.4 Consensus size: 59
36509894 TATGGATACC
* * * *
36509904 CGGGGGCAAAATGGTAATTTT-GGTGGAATCGGGGTCAAAATTGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
36509962 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-AAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
36510020 CGAGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
36510079 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGTAATTTTGGAAAAG-TT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AAAAGATT
*
36510138 -TGGGGTCAAAAT-GTAATTTT
1 CGGGGGT-AAAATGGTAATTTT
36510158 GGTAAAGTTT
Statistics
Matches: 180, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
58 100 0.56
59 75 0.42
60 5 0.03
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:36510120 original size:58 final size:57
Alignment explanation
Indices: 36509904--36510187 Score: 344
Period size: 59 Copynumber: 4.9 Consensus size: 57
36509894 TATGGATACC
* * *
36509904 CGGGGGCAAAATGGTAATTTTGGTGGAATCGGGGTCAAAATTGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAA-TGGAATTTTAAAAGATT
36509962 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-AAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATT
* *
36510020 CGAGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATT
*
36510079 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAATGTAATTTTGGAAAAG-TT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAATGGAATTTT--AAAAGATT
* * *
36510138 -TGGGGTCAAAAT-GTAATTTTGGT-AAAGTTTCGGGGTCAAAATGTAATTTT
1 CGGGGGT-AAAATGGTAATTTTGGTGAAA---TCGGGGTTAAAATGGAATTTT
36510188 GGAAAAGTTT
Statistics
Matches: 206, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
56 3 0.01
57 7 0.03
58 92 0.45
59 95 0.46
60 9 0.04
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (57 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAATGGAATTTTAAAAGATT
Found at i:36510154 original size:117 final size:116
Alignment explanation
Indices: 36509904--36510158 Score: 365
Period size: 117 Copynumber: 2.2 Consensus size: 116
36509894 TATGGATACC
* * * *
36509904 CGGGGGCAAAATGGTAATTTTGGTGGAATCGGGGTCAAAATTGGAATTTTAAAAGATTCGGGGGT
1 CGGGGTCAAAATGGTAATTTTGATGAAATCGGGGTCAAAAATGGAATTTTAAAAGATTCGGGGGT
*
36509969 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAGATT
66 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAGATT
*
36510020 CGAGGGT-AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGG
1 CG-GGGTCAAAATGGTAATTTT-GATGAAATCGGGGTCAAAAATGGAATTTTAAAAGATTCGGGG
*
36510084 GTAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGTAATTTTGGAAA-AGTT
64 GTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT--AAAGA-TT
*
36510138 TGGGGTCAAAAT-GTAATTTTG
1 CGGGGTCAAAATGGTAATTTTG
36510159 GTAAAGTTTC
Statistics
Matches: 125, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
116 29 0.23
117 85 0.68
118 11 0.09
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (116 bp):
CGGGGTCAAAATGGTAATTTTGATGAAATCGGGGTCAAAAATGGAATTTTAAAAGATTCGGGGGT
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAGATT
Found at i:36510175 original size:30 final size:30
Alignment explanation
Indices: 36510108--36510369 Score: 337
Period size: 30 Copynumber: 8.7 Consensus size: 30
36510098 TTCGGTGAAA
*
36510108 TCGGGGTTAAAATGTAATTTTGGAAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
*
36510138 T-GGGGTCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
36510167 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
* * *
36510197 TTGGGATCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
*
36510227 TCGGGGTCAAAAATATAATTTTGGAAAAGTT
1 TCGGGGTC-AAAATGTAATTTTGGAAAAGTT
* * * * *
36510258 TTGAGGTTAAAATATAATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
* *
36510288 TCGGGGTCGAAAATATAGTTTTGGAAAAGTT
1 TCGGGGTC-AAAATGTAATTTTGGAAAAGTT
* * *
36510319 TTGGGGTCAAAATATAATTTTGGGAAAGTT
1 TCGGGGTCAAAATGTAATTTTGGAAAAGTT
* *
36510349 TTGGGGTTAAAATGTAATTTT
1 TCGGGGTCAAAATGTAATTTT
36510370 TGGACAATTT
Statistics
Matches: 205, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.13
30 126 0.61
31 52 0.25
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
TCGGGGTCAAAATGTAATTTTGGAAAAGTT
Found at i:36510270 original size:61 final size:61
Alignment explanation
Indices: 36510108--36510369 Score: 388
Period size: 61 Copynumber: 4.4 Consensus size: 61
36510098 TTCGGTGAAA
*
36510108 TCGGGGT-TAAAATGTAATTTTGGAAAAG-TTTGGGGTCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGTAAAGTT
* *
36510167 TCGGGGTC-AAAATGTAATTTTGGAAAAGTTTTGGGATCAAAATGTAATTTTGGTAAAGTT
1 TCGGGGTCTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGTAAAGTT
* * * *
36510227 TCGGGGTCAAAAATATAATTTTGGAAAAGTTTTGAGGTTAAAATATAATTTTGGTAAAGTT
1 TCGGGGTCTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGTAAAGTT
* * * *
36510288 TCGGGGTCGAAAATATAGTTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGGAAAGTT
1 TCGGGGTCTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGTAAAGTT
*
36510349 TTGGGGT-TAAAATGTAATTTT
1 TCGGGGTCTAAAATGTAATTTT
36510370 TGGACAATTT
Statistics
Matches: 185, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
59 27 0.15
60 49 0.26
61 109 0.59
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (61 bp):
TCGGGGTCTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGTAAAGTT
Found at i:36510270 original size:91 final size:90
Alignment explanation
Indices: 36510116--36510369 Score: 357
Period size: 91 Copynumber: 2.8 Consensus size: 90
36510106 AATCGGGGTT
* * * *
36510116 AAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTGGTAAAGTTTCGGGGTCAAAATG
1 AAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATG
*
36510181 TAATTTTGGAAAAGTTTTGGGATC-
66 TAATTTTGGAAAAGTTTCGGGATCG
* *
36510205 AAAATGTAATTTTGGTAAAGTTTCGGGGTCAAAAATATAATTTTGGAAAAGTTTTGAGGTTAAAA
1 AAAATGTAATTTTGGAAAAGTTT-GGGGTC-AAAATATAATTTTGGAAAAGTTTTGGGGTTAAAA
* * *
36510270 TATAATTTTGGTAAAGTTTCGGGGTCG
64 TGTAATTTTGGAAAAGTTTCGGGATCG
* * *
36510297 AAAATATAGTTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGGAAAGTTTTGGGGTTAAAAT
1 AAAATGTAATTTTGGAAAAG-TTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAAT
36510362 GTAATTTT
65 GTAATTTT
36510370 TGGACAATTT
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
89 22 0.15
90 6 0.04
91 91 0.63
92 23 0.16
93 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (90 bp):
AAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTTAAAATG
TAATTTTGGAAAAGTTTCGGGATCG
Found at i:36510684 original size:162 final size:162
Alignment explanation
Indices: 36510484--36510779 Score: 479
Period size: 162 Copynumber: 1.8 Consensus size: 162
36510474 AAATTTAGAT
* *
36510484 CAATTTTGTAATTAAATAAAAGTCGATTTAAAGATTAAATTAAAACAAATTAAAAATAAAAAGGA
1 CAATTTCGTAATTAAATAAAAGTCGATTTAAAGATTAAATTAAAACAAATAAAAAATAAAAAGGA
* *
36510549 CTAAATGCAGAAATAATCCAAAAAGATGACACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAG
66 CTAAATGCAGAAATAATCCAAAAAG-TGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAAG
36510614 GACTAGTTTATAAACCTTGAAAAATTATTGGGC
130 GACTAGTTTATAAACCTTGAAAAATTATTGGGC
* **
36510647 CAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAATAAAAAATAAAAAGG
1 CAATTTCGTAATTAAATA-AAAGTCGATTTAAAGATTAAATTAAAACAAATAAAAAATAAAAAGG
* *
36510710 ACTAAATGCATAAATAATCCAAAAAGTGACACGTGGCAGCCTATGGTACAGTCAAACAGTCAAAG
65 ACTAAATGCAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAAG
36510775 GACTA
130 GACTA
36510780 AATTGAAAAG
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
161 41 0.33
162 57 0.46
163 25 0.20
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (162 bp):
CAATTTCGTAATTAAATAAAAGTCGATTTAAAGATTAAATTAAAACAAATAAAAAATAAAAAGGA
CTAAATGCAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGG
ACTAGTTTATAAACCTTGAAAAATTATTGGGC
Found at i:36511311 original size:14 final size:14
Alignment explanation
Indices: 36511292--36511319 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36511282 TGAGCCAAAA
36511292 CCAGATCTGGAAAT
1 CCAGATCTGGAAAT
36511306 CCAGATCTGGAAAT
1 CCAGATCTGGAAAT
36511320 TTTCAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
CCAGATCTGGAAAT
Found at i:36511581 original size:20 final size:20
Alignment explanation
Indices: 36511556--36511625 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
36511546 CTTTTTTCTT
*
36511556 TTATTATAAATTAATATTTA
1 TTATTATAAAATAATATTTA
** *
36511576 TTATTA-AAACCAAAACTTTA
1 TTATTATAAAATAATA-TTTA
36511596 TTATTATTTAAAATATATATTTA
1 TTATTA--TAAAATA-ATATTTA
36511619 TTATTAT
1 TTATTAT
36511626 TATTATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 6 0.15
20 16 0.41
21 1 0.03
23 14 0.36
24 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTATAAAATAATATTTA
Found at i:36512208 original size:18 final size:15
Alignment explanation
Indices: 36512173--36512203 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36512163 ATGGTGGATG
36512173 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
36512188 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
36512203 G
1 G
36512204 CAGAGGCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:36512280 original size:14 final size:14
Alignment explanation
Indices: 36512261--36512321 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 14
36512251 TTGGGCCTAT
*
36512261 TTGGGCCATTATAA
1 TTGGGCCATTGTAA
*
36512275 TTGGGCC-CT-TAA
1 TTGGGCCATTGTAA
*
36512287 TTGGGCCTTTGTAA
1 TTGGGCCATTGTAA
36512301 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
36512315 TTGGGCC
1 TTGGGCC
36512322 CTGGGCCATG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 10 0.24
13 2 0.05
14 30 0.71
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (14 bp):
TTGGGCCATTGTAA
Found at i:36512301 original size:26 final size:28
Alignment explanation
Indices: 36512261--36512321 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
36512251 TTGGGCCTAT
36512261 TTGGGCCATTATAATTGGGCC-CT-TAA
1 TTGGGCCATTATAATTGGGCCACTGTAA
* * *
36512287 TTGGGCCTTTGTAATTGGGCCATTGTAA
1 TTGGGCCATTATAATTGGGCCACTGTAA
36512315 TTGGGCC
1 TTGGGCC
36512322 CTGGGCCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 19 0.63
27 1 0.03
28 10 0.33
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (28 bp):
TTGGGCCATTATAATTGGGCCACTGTAA
Found at i:36512368 original size:17 final size:16
Alignment explanation
Indices: 36512348--36512416 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
36512338 GACTTTCTTT
36512348 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
36512365 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
36512381 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
36512399 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
36512415 TT
1 TT
36512417 TAAGATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 29 0.62
18 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:36512374 original size:6 final size:6
Alignment explanation
Indices: 36512365--36512419 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
36512355 TATAATAACA
* *
36512365 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
36512410 ATAAAT TTAA
1 TTAAAT TTAA
36512420 GATTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:36512380 original size:11 final size:11
Alignment explanation
Indices: 36512364--36512426 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
36512354 TTATAATAAC
36512364 ATTAAATTTAA
1 ATTAAATTTAA
*
36512375 ATTAAATTCAA
1 ATTAAATTTAA
36512386 ATTTAAATTTAA
1 A-TTAAATTTAA
*
36512398 ATTGAATTTAA
1 ATTAAATTTAA
*
36512409 AATAAATTTAA
1 ATTAAATTTAA
36512420 GATTAAA
1 -ATTAAA
36512427 ATAAATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:36518271 original size:14 final size:15
Alignment explanation
Indices: 36518249--36518286 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
36518239 GCCTTTTTAG
*
36518249 TTCTGTTTTT-CTTT
1 TTCTTTTTTTGCTTT
36518263 TTCTTTTTTTGCTTT
1 TTCTTTTTTTGCTTT
36518278 TT-TTTTTTT
1 TTCTTTTTTT
36518287 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (15 bp):
TTCTTTTTTTGCTTT
Found at i:36524281 original size:6 final size:6
Alignment explanation
Indices: 36524270--36524296 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36524260 AATTTATGTG
36524270 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
36524297 GTATTGAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:36527178 original size:20 final size:22
Alignment explanation
Indices: 36527137--36527179 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36527127 ATAAAATTAT
36527137 TAAATATTAAAATAACATAATA
1 TAAATATTAAAATAACATAATA
*
36527159 TAAATATTTAAA-AA-ATAATA
1 TAAATATTAAAATAACATAATA
36527179 T
1 T
36527180 GGATAGTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATTAAAATAACATAATA
Found at i:36530151 original size:21 final size:21
Alignment explanation
Indices: 36530126--36530167 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36530116 TCCTATTGTC
36530126 GTATTAGAGCTTTTACATGTT
1 GTATTAGAGCTTTTACATGTT
**
36530147 GTATTTTAGCTTTTACATGTT
1 GTATTAGAGCTTTTACATGTT
36530168 CTGATGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (21 bp):
GTATTAGAGCTTTTACATGTT
Found at i:36531348 original size:56 final size:57
Alignment explanation
Indices: 36531221--36531374 Score: 186
Period size: 56 Copynumber: 2.7 Consensus size: 57
36531211 TATATTATGA
* * *
36531221 TTTTTATT-AATTCATATTTTAATAATAATTATATTCATAATGTCATTAAATTATATACT
1 TTTTTATTAAATT-ATA-TTTAATAATAATCATATT-AAAATATCATTAAATTATATACT
* * * * *
36531280 ATTTTATTAAATTGTATTTAATAATAATCATGTTAAAATATGATTAAATTATTTA-T
1 TTTTTATTAAATTATATTTAATAATAATCATATTAAAATATCATTAAATTATATACT
*
36531336 TTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
1 TTTTTATTAAATTATATTTAATAATAATCATATTAAAAT
36531375 TTAACAACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
56 36 0.44
57 17 0.21
58 16 0.20
59 9 0.11
60 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (57 bp):
TTTTTATTAAATTATATTTAATAATAATCATATTAAAATATCATTAAATTATATACT
Found at i:36531562 original size:16 final size:16
Alignment explanation
Indices: 36531541--36531597 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
36531531 TGAAATACTG
*
36531541 ATTACAGCCCTATTTC
1 ATTACAGCCCTATTAC
****
36531557 ATTACATTTTTATTAC
1 ATTACAGCCCTATTAC
* *
36531573 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTAC
36531589 ATTACAGCC
1 ATTACAGCC
36531598 AACCAAACGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCCCTATTAC
Found at i:36532353 original size:28 final size:28
Alignment explanation
Indices: 36532321--36532376 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
36532311 ATTGAGTATC
*
36532321 AATAAAATGTAAAT-TT-AGATACTAAATT
1 AATAAAA-G-AAATCTTAAGATACCAAATT
36532349 AATAAAAGAAATCTTAAGATACCAAATT
1 AATAAAAGAAATCTTAAGATACCAAATT
36532377 CATTATTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 18 0.72
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (28 bp):
AATAAAAGAAATCTTAAGATACCAAATT
Found at i:36533483 original size:14 final size:16
Alignment explanation
Indices: 36533463--36533511 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
36533453 GATATTTATA
36533463 AATTAAAATAC-ATAT
1 AATTAAAATACAATAT
*
36533478 -ATT-AAATACAATTT
1 AATTAAAATACAATAT
36533492 AATTAAAATAACAATA-
1 AATTAAAAT-ACAATAT
36533508 AATT
1 AATT
36533512 CGAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 3 0.11
16 8 0.29
17 5 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAATACAATAT
Found at i:36548929 original size:17 final size:17
Alignment explanation
Indices: 36548909--36548946 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
36548899 TCATGTTACT
36548909 AAATTCACATTTAAAAA
1 AAATTCACATTTAAAAA
*
36548926 AAA-TCACATTTTAAAA
1 AAATTCACATTTAAAAA
*
36548942 TAATT
1 AAATT
36548947 TATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTCACATTTAAAAA
Found at i:36549621 original size:21 final size:21
Alignment explanation
Indices: 36549577--36549628 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
36549567 AACTTTAACG
36549577 AAATTAA--AATTGGATTGAA
1 AAATTAATTAATTGGATTGAA
*
36549596 AAATTATTTAATTGGA-TGAA
1 AAATTAATTAATTGGATTGAA
*
36549616 TTAATTAATTAAT
1 -AAATTAATTAAT
36549629 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.22
20 4 0.15
21 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
AAATTAATTAATTGGATTGAA
Found at i:36552882 original size:115 final size:116
Alignment explanation
Indices: 36552712--36552939 Score: 404
Period size: 115 Copynumber: 2.0 Consensus size: 116
36552702 GCAGGCTGGG
* *
36552712 GTTAATCCTTTGGCAGGTATCCTTTTGATTAATTACTTCAGATTGTATGTTTATTTTTCATGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGTATGGTTATTTTTCATGTTT
36552777 AATTAAATTTAGCTTCTTTTGAAAAATGGGTTTTTGCTTCGTTGGTATGAT
66 AATTAAATTTAGCTTCTTTTGAAAAATGGGTTTTTGCTTCGTTGGTATGAT
*
36552828 GTTAATCCTATGGCAGGTATCC-TTTGATTAATTACTTCAGATTGTATGGTTATTTTTCATTTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGTATGGTTATTTTTCATGTTT
**
36552892 AATTAAATTTAGCTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
66 AATTAAATTTAGCTTCTTTTGAAAAATGGGTTTTTGCTTCGTTGGTAT
36552940 CTAGCTTATA
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 86 0.80
116 21 0.20
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.50
Consensus pattern (116 bp):
GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGTATGGTTATTTTTCATGTTT
AATTAAATTTAGCTTCTTTTGAAAAATGGGTTTTTGCTTCGTTGGTATGAT
Found at i:36567989 original size:34 final size:34
Alignment explanation
Indices: 36567946--36568016 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
36567936 ACTGAAAATA
*
36567946 TTTGTAAGGAGAAAAGGTATAACTATCCTCAATT
1 TTTGTAAGGAGAAAAGCTATAACTATCCTCAATT
36567980 TTTGTAAGGAGAAAAGCTATAACTATCCTCAATT
1 TTTGTAAGGAGAAAAGCTATAACTATCCTCAATT
36568014 TTT
1 TTT
36568017 TTATAGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (34 bp):
TTTGTAAGGAGAAAAGCTATAACTATCCTCAATT
Found at i:36569306 original size:17 final size:18
Alignment explanation
Indices: 36569273--36569314 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
36569263 AAAAAATTAG
*
36569273 ATTTTTATAAGTGTTTAT
1 ATTTTTATAAGTATTTAT
36569291 ATTTTTATAA-TATTTAT
1 ATTTTTATAAGTATTTAT
36569308 ATATTTT
1 AT-TTTT
36569315 TTGAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATAAGTATTTAT
Found at i:36575283 original size:29 final size:30
Alignment explanation
Indices: 36575216--36575285 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
36575206 ATATTTATAT
*
36575216 TTTTATAATTTTTAAAAGATTAAATCAAAA
1 TTTTATCATTTTTAAAAGATTAAATCAAAA
* *
36575246 TTTTATCATTTTTAAAGGATTAAAAT-ATAA
1 TTTTATCATTTTTAAAAGATT-AAATCAAAA
36575276 TTTT-TCATTT
1 TTTTATCATTT
36575286 ACTAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.17
30 26 0.72
31 4 0.11
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTTATCATTTTTAAAAGATTAAATCAAAA
Found at i:36577450 original size:18 final size:18
Alignment explanation
Indices: 36577427--36577469 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36577417 GAATATGTTG
36577427 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
36577445 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
36577463 TTAATTA
1 TTAATTA
36577470 CATTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36577947 original size:9 final size:9
Alignment explanation
Indices: 36577933--36577966 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
36577923 AGGCTATTAC
36577933 TAATTCGAT
1 TAATTCGAT
*
36577942 TAATTCAAT
1 TAATTCGAT
*
36577951 TAATTTGAT
1 TAATTCGAT
36577960 TAATTCG
1 TAATTCG
36577967 GTAAAATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (9 bp):
TAATTCGAT
Found at i:36603977 original size:7 final size:7
Alignment explanation
Indices: 36603965--36603989 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36603955 CTCCTGATTC
36603965 TTTGCTG
1 TTTGCTG
36603972 TTTGCTG
1 TTTGCTG
36603979 TTTGCTG
1 TTTGCTG
36603986 TTTG
1 TTTG
36603990 TACTTTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.28, T:0.60
Consensus pattern (7 bp):
TTTGCTG
Found at i:36604681 original size:31 final size:31
Alignment explanation
Indices: 36604646--36604710 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
36604636 AACAGTCCAG
* *
36604646 TGACTTAAATAAAAAGTTTTGAATAGTTTAA
1 TGACTTAAATAAAAACTTTTGAATAGTTCAA
*
36604677 TGACTTAAATGAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTTGAATAGTTCAA
36604708 TGA
1 TGA
36604711 TCGAATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTCAA
Found at i:36617346 original size:31 final size:32
Alignment explanation
Indices: 36617291--36617357 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
36617281 ATAAAAAATC
* * *
36617291 ATTTCGATTTTTTTCAAAAGATTGATAGTTAA
1 ATTTCGATTTTTTTCAAAAAATTGAGAGATAA
36617323 ATTT-GATTCTTTTT-AAAAAATTGAGAGATAA
1 ATTTCGATT-TTTTTCAAAAAATTGAGAGATAA
36617354 ATTT
1 ATTT
36617358 AGCGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.46
Consensus pattern (32 bp):
ATTTCGATTTTTTTCAAAAAATTGAGAGATAA
Found at i:36618932 original size:26 final size:26
Alignment explanation
Indices: 36618867--36618920 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
36618857 TTAACTATGA
36618867 AATAAGAT-TTAATAAATAAAATTTTG
1 AATAA-ATATTAATAAATAAAATTTTG
* *
36618893 ATTAAATATTAATAAATAGAA-TTTG
1 AATAAATATTAATAAATAAAATTTTG
36618918 AAT
1 AAT
36618921 CAATTTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (26 bp):
AATAAATATTAATAAATAAAATTTTG
Found at i:36622715 original size:24 final size:24
Alignment explanation
Indices: 36622683--36622733 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
36622673 GAGTGCAGTC
36622683 AATCTTCTCTGTACATGTCTTATG
1 AATCTTCTCTGTACATGTCTTATG
*
36622707 AATCTTCTCTGTACATTTCTTATG
1 AATCTTCTCTGTACATGTCTTATG
36622731 AAT
1 AAT
36622734 GCTGATGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.47
Consensus pattern (24 bp):
AATCTTCTCTGTACATGTCTTATG
Found at i:36623649 original size:28 final size:28
Alignment explanation
Indices: 36623617--36623702 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 28
36623607 ATTTCTTTAA
36623617 TATATATAATAAAATCAAATTAAAATTT
1 TATATATAATAAAATCAAATTAAAATTT
* * * * *
36623645 TATATTTAAAAATAATTAAAATAAAAGTTG
1 TATATATAATAA-AATCAAATTAAAA-TTT
* * *
36623675 TACATATAATTATA-CAAAATTAAAATTT
1 TATATATAATAAAATC-AAATTAAAATTT
36623703 ATCAATTATA
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
28 12 0.29
29 20 0.48
30 10 0.24
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
TATATATAATAAAATCAAATTAAAATTT
Found at i:36623916 original size:19 final size:17
Alignment explanation
Indices: 36623875--36623933 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 17
36623865 ACATACAATA
*
36623875 AATATAAATATAATATT
1 AATATAAATATAATATC
*
36623892 AATATAAATATGTATTATC
1 AATATAAATA--TAATATC
36623911 AATATAAA-ATTAA-ATC
1 AATATAAATA-TAATATC
36623927 AATATAA
1 AATATAA
36623934 TGAATCAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.28
17 12 0.33
18 1 0.03
19 13 0.36
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (17 bp):
AATATAAATATAATATC
Found at i:36634605 original size:19 final size:21
Alignment explanation
Indices: 36634567--36634608 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
36634557 ACGCCACCAT
*
36634567 TTTTTTCCCCCTTTTAATTTC
1 TTTTTTCCCCCTTGTAATTTC
36634588 TTTTTT-CCCCTTGT-ATTTC
1 TTTTTTCCCCCTTGTAATTTC
36634607 TT
1 TT
36634609 ACAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.07, C:0.26, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTCCCCCTTGTAATTTC
Found at i:36639525 original size:16 final size:16
Alignment explanation
Indices: 36639504--36639543 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
36639494 CGTTTGGTTC
*
36639504 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
36639520 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
36639536 GCTGTAAT
1 GCTGTAAT
36639544 CAGTAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:36639611 original size:44 final size:46
Alignment explanation
Indices: 36639532--36639619 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
36639522 TGTAATAGAA
*
36639532 TAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGGAATTGAC
1 TAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGAAATTGAC
*
36639578 TAGAGCTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGAAATTG
1 TAGAGCTGTAATCAGTAATTC-AGCTGTTTGGTTGAATGAAATTG
36639620 TGCTGTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 23 0.59
45 4 0.10
46 12 0.31
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (46 bp):
TAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGAAATTGAC
Found at i:36641864 original size:8 final size:8
Alignment explanation
Indices: 36641851--36641882 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
36641841 AAATCGAGAA
36641851 TTAATTAT
1 TTAATTAT
36641859 TTAATTAAT
1 TTAATT-AT
36641868 TTAATTAT
1 TTAATTAT
36641876 TTAATTA
1 TTAATTA
36641883 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTAATTAT
Found at i:36641873 original size:17 final size:17
Alignment explanation
Indices: 36641851--36641886 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36641841 AAATCGAGAA
36641851 TTAATTATTTAATTAAT
1 TTAATTATTTAATTAAT
36641868 TTAATTATTTAATTAAT
1 TTAATTATTTAATTAAT
36641885 TT
1 TT
36641887 TTAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAATTATTTAATTAAT
Found at i:36641927 original size:32 final size:33
Alignment explanation
Indices: 36641855--36641928 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
36641845 CGAGAATTAA
* * *
36641855 TTATTTA-ATTAATTTAATTATTTAATTAATTT
1 TTATTTATATTAATATAATTATATAATTAATAT
* *
36641887 TTA-ATATATTGATATAATTATATAA-TAATAT
1 TTATTTATATTAATATAATTATATAATTAATAT
36641918 TTATTTATATT
1 TTATTTATATT
36641929 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 10 0.29
32 24 0.71
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
TTATTTATATTAATATAATTATATAATTAATAT
Found at i:36643701 original size:20 final size:22
Alignment explanation
Indices: 36643678--36643720 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
36643668 ACAATATAAT
*
36643678 TATTTTTAT-TATG-TTTTAAA
1 TATTTTTATATAGGTTTTTAAA
36643698 TATTTTTATATAGGTTTTTAAA
1 TATTTTTATATAGGTTTTTAAA
36643720 T
1 T
36643721 TTAAAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATATAGGTTTTTAAA
Found at i:36644587 original size:24 final size:24
Alignment explanation
Indices: 36644557--36644602 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
36644547 AATAAGCAAG
36644557 AAGAAAGAAGGAAGAAGAAGAGGA
1 AAGAAAGAAGGAAGAAGAAGAGGA
*
36644581 AAGAAAGAAGGAAGAAGGAGAG
1 AAGAAAGAAGGAAGAAGAAGAG
36644603 AAATGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAGGAAGAAGAAGAGGA
Found at i:36645295 original size:26 final size:27
Alignment explanation
Indices: 36645269--36645320 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36645259 AAAACCTCAA
36645269 GGTACCGTCACTTCAAAACCCTCCAAG
1 GGTACCGTCACTTCAAAACCCTCCAAG
** *
36645296 GGTGTCGTCACTTCAAAACCTTCCA
1 GGTACCGTCACTTCAAAACCCTCCA
36645321 TCTGTGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (27 bp):
GGTACCGTCACTTCAAAACCCTCCAAG
Found at i:36645624 original size:14 final size:15
Alignment explanation
Indices: 36645589--36645637 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
36645579 TTTGATAAAC
36645589 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTAT
*
36645604 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTAT
* *
36645619 TGAAAATTTAAGCAT
1 TGAAAAATTAAGTAT
36645634 TGAA
1 TGAA
36645638 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (15 bp):
TGAAAAATTAAGTAT
Found at i:36645847 original size:14 final size:14
Alignment explanation
Indices: 36645828--36645854 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36645818 TGTTTCACTA
36645828 AAAATGATTTATGG
1 AAAATGATTTATGG
36645842 AAAATGATTTATG
1 AAAATGATTTATG
36645855 CATTTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (14 bp):
AAAATGATTTATGG
Found at i:36646200 original size:16 final size:16
Alignment explanation
Indices: 36646179--36646212 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
36646169 TTTATTTTAG
36646179 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
36646195 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
36646211 TA
1 TA
36646213 TTATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:36646265 original size:15 final size:15
Alignment explanation
Indices: 36646245--36646302 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
36646235 ATTCAATATT
36646245 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36646260 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
36646279 AATATATTAATAATA
1 AATATTTTAATAATA
*
36646294 AATGTTTTA
1 AATATTTTA
36646303 TGGTATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36663215 original size:4 final size:4
Alignment explanation
Indices: 36663206--36663232 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36663196 TTAAACTTAA
36663206 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
36663233 TTTATTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:36670648 original size:19 final size:20
Alignment explanation
Indices: 36670611--36670649 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
36670601 TTCAAGACTT
* *
36670611 ACTTTGTAATACTTTTTTTA
1 ACTTTGTAAGACTTCTTTTA
36670631 ACTTT-TAAGACTTCTTTTA
1 ACTTTGTAAGACTTCTTTTA
36670650 TTTTGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ACTTTGTAAGACTTCTTTTA
Found at i:36670670 original size:17 final size:18
Alignment explanation
Indices: 36670650--36670687 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
36670640 ACTTCTTTTA
36670650 TTTTG-TAATTGTTAACT
1 TTTTGTTAATTGTTAACT
*
36670667 TTTTGTTTGATTGTTAACT
1 TTTTG-TTAATTGTTAACT
36670686 TT
1 TT
36670688 CAAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.63
Consensus pattern (18 bp):
TTTTGTTAATTGTTAACT
Found at i:36674032 original size:24 final size:24
Alignment explanation
Indices: 36674005--36674078 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
36673995 GATCCAGAAC
*
36674005 CAGAGCCAA-AACCGGAGGCAGAGG
1 CAGAG-CAAGAACCGGAGCCAGAGG
* *
36674029 CAGAGCAAGAATCGGAGCCAGAGT
1 CAGAGCAAGAACCGGAGCCAGAGG
* * *
36674053 TAGAGGC-AGAACCGGAACCGGAGG
1 CAGA-GCAAGAACCGGAGCCAGAGG
36674077 CA
1 CA
36674079 AAGCCAGAGC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.08
24 34 0.87
25 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.36, T:0.04
Consensus pattern (24 bp):
CAGAGCAAGAACCGGAGCCAGAGG
Found at i:36674072 original size:54 final size:54
Alignment explanation
Indices: 36674014--36674129 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
36674004 CCAGAGCCAA
* * * * *
36674014 AACCGGAGGCAGAGGCAGAGCAAGAATCGGAGCCAGAGTTAGAGGCAGAACCGG
1 AACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGG
36674068 AACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGG
1 AACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGG
*
36674122 AGCCGGAG
1 AACCGGAG
36674130 CCGGAGCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.38, C:0.21, G:0.36, T:0.05
Consensus pattern (54 bp):
AACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGG
Found at i:36674074 original size:78 final size:78
Alignment explanation
Indices: 36673923--36674074 Score: 225
Period size: 78 Copynumber: 1.9 Consensus size: 78
36673913 GCCAGAGTCG
* * *
36673923 GAACCGGAACCAAAACCGGAGGCAGAGTCAAAGCAAGAACCGGAGCCAGAGTTAGAGGCAAAACT
1 GAACCAGAACCAAAACCGGAGGCAGAGGCAAAGCAAGAACCGGAGCCAGAGTTAGAGGCAAAACG
36673988 GAAGCCGGATCCA
66 GAAGCCGGATCCA
* * * *
36674001 GAACCAGAGCCAAAACCGGAGGCAGAGGCAGAGCAAGAATCGGAGCCAGAGTTAGAGGCAGAACC
1 GAACCAGAACCAAAACCGGAGGCAGAGGCAAAGCAAGAACCGGAGCCAGAGTTAGAGGCA-AAAC
36674066 GGAA-CCGGA
65 GGAAGCCGGA
36674075 GGCAAAGCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 60 0.91
79 6 0.09
ACGTcount: A:0.39, C:0.24, G:0.32, T:0.05
Consensus pattern (78 bp):
GAACCAGAACCAAAACCGGAGGCAGAGGCAAAGCAAGAACCGGAGCCAGAGTTAGAGGCAAAACG
GAAGCCGGATCCA
Found at i:36674123 original size:78 final size:79
Alignment explanation
Indices: 36673955--36674198 Score: 189
Period size: 78 Copynumber: 3.1 Consensus size: 79
36673945 CAGAGTCAAA
* * **
36673955 GCAAGAACCGGAGCCAGAGTTAGAGGCA-AAACTGAAGCCGGATCCAGAA-CCAGAGCCAA-AAC
1 GCAAGAACCGGAGCCAGAGTTAGAGGCAGAACCAGAA-CCGGAGGCA-AAGCCAGAG-CAAGAAC
* **
36674017 CGGAGGC-AGAGGCAGA-
63 C-GAAGCAAGAGTTAGAG
* * *
36674033 GCAAGAATCGGAGCCAGAGTTAGAGGCAGAACCGGAACCGGAGGCAAAGCCAGAGCAAGAATCGA
1 GCAAGAACCGGAGCCAGAGTTAGAGGCAGAACCAGAACCGGAGGCAAAGCCAGAGCAAGAACCGA
36674098 AGCAAGAGTTAGAG
66 AGCAAGAGTTAGAG
* *** * * * * * * * *
36674112 GCAA-AACCGGAGCCGGAGCCGGAGCCGGATCCAGAACCGGAGGCAGAGCAAAAGCAAGAAGCGG
1 GCAAGAACCGGAGCCAGAGTTAGAGGCAGAACCAGAACCGGAGGCAAAGCCAGAGCAAGAACCGA
36674176 AGCCAA-AGTTAGAG
66 AG-CAAGAGTTAGAG
36674190 GCAA-AACCG
1 GCAAGAACCG
36674199 AAGATGGATC
Statistics
Matches: 137, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
77 9 0.07
78 115 0.84
79 13 0.09
ACGTcount: A:0.38, C:0.23, G:0.34, T:0.05
Consensus pattern (79 bp):
GCAAGAACCGGAGCCAGAGTTAGAGGCAGAACCAGAACCGGAGGCAAAGCCAGAGCAAGAACCGA
AGCAAGAGTTAGAG
Found at i:36674150 original size:132 final size:132
Alignment explanation
Indices: 36673936--36674198 Score: 348
Period size: 132 Copynumber: 2.0 Consensus size: 132
36673926 CCGGAACCAA
* * * * * *
36673936 AACCGGAGGCAGAGTCAAAGCAAGAACCGGAGCCAGAGTTAGAGGCAAAACTGAAGCCGGATCCA
1 AACCGGAGGCAAAGCCAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAGCCGGAGCCA
* * * *
36674001 GAACCAGAGCCAAAACCGGAGGCAGAGGC-AGAGCAAGAATCGGAGCCAGAGTTAGAGGCAGAAC
66 GAACCAGAGCCAAAACCGGAGGCAGA-GCAAAAGCAAGAAGCGGAGCCAAAGTTAGAGGCAAAAC
36674065 CGG
130 CGG
* * * *
36674068 AACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGGAGCCGGAGCCG
1 AACCGGAGGCAAAGCCAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAGCCGGAGCCA
* * * *
36674133 GAGCCGGATCCAGAACCGGAGGCAGAGCAAAAGCAAGAAGCGGAGCCAAAGTTAGAGGCAAAACC
66 GAACCAGAGCCAAAACCGGAGGCAGAGCAAAAGCAAGAAGCGGAGCCAAAGTTAGAGGCAAAACC
36674198 G
131 G
36674199 AAGATGGATC
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
131 2 0.02
132 110 0.98
ACGTcount: A:0.38, C:0.23, G:0.33, T:0.05
Consensus pattern (132 bp):
AACCGGAGGCAAAGCCAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAGCCGGAGCCA
GAACCAGAGCCAAAACCGGAGGCAGAGCAAAAGCAAGAAGCGGAGCCAAAGTTAGAGGCAAAACC
GG
Found at i:36674218 original size:78 final size:78
Alignment explanation
Indices: 36674067--36674218 Score: 189
Period size: 78 Copynumber: 1.9 Consensus size: 78
36674057 GGCAGAACCG
* * * * *
36674067 GAACCGGAGGCAAAGCCAGAGCAAGAATCGAAGCAAGAGTTAGAGGCAAAACCGGAGCCGGAGCC
1 GAACCGGAGGCAAAGCAAAAGCAAGAAGCGAAGCAAGAGTTAGAGGCAAAACCGAAGACGGAGCC
* *
36674132 GGAGCCGGATCCA
66 AGAACCGGATCCA
* * * *
36674145 GAACCGGAGGCAGAGCAAAAGCAAGAAGCGGAGCCAA-AGTTAGAGGCAAAACCGAAGATGGATC
1 GAACCGGAGGCAAAGCAAAAGCAAGAAGCGAAG-CAAGAGTTAGAGGCAAAACCGAAGACGGAGC
36674209 CAGAACCGGA
65 CAGAACCGGA
36674219 GGCAGAGCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
78 59 0.95
79 3 0.05
ACGTcount: A:0.39, C:0.22, G:0.34, T:0.05
Consensus pattern (78 bp):
GAACCGGAGGCAAAGCAAAAGCAAGAAGCGAAGCAAGAGTTAGAGGCAAAACCGAAGACGGAGCC
AGAACCGGATCCA
Found at i:36674326 original size:18 final size:18
Alignment explanation
Indices: 36674284--36674326 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
36674274 CCAGAGTTAG
* *
36674284 AGCCAGAACCGGAGTCAA
1 AGCCAGAACCAGACTCAA
* *
36674302 AGTCAGAACCAGACTCAC
1 AGCCAGAACCAGACTCAA
36674320 AGCCAGA
1 AGCCAGA
36674327 CCCGCAGCTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.23, T:0.07
Consensus pattern (18 bp):
AGCCAGAACCAGACTCAA
Found at i:36680364 original size:69 final size:69
Alignment explanation
Indices: 36680019--36680342 Score: 513
Period size: 69 Copynumber: 4.7 Consensus size: 69
36680009 ATGATAGTGG
* * * *
36680019 ATCGTCATCTTCTCAAGTTCCTTCTTCAAATCCAATGCCACCACCTCCAAATGTCCTTAGAGATG
1 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCCGAATGTCGTTAGAGATG
36680084 GATC
66 GATC
* * *
36680088 ATCGTCATCTTCTCAAGCTCCTTCTTCGAATCCAATGCTGCCACCTCCGAATGTCGTTAGAGACG
1 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCCGAATGTCGTTAGAGATG
36680153 GATC
66 GATC
* * *
36680157 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAAAGCCGTCACCTCCGAATGTCGTTAGAGACG
1 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCCGAATGTCGTTAGAGATG
36680222 GATC
66 GATC
* * * *
36680226 ATCGTCATCTTCTCAAGTTCCCTCTTCGAATCCAAAGCCGTCACCTCCGAATGCCGTTAGAGATG
1 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCCGAATGTCGTTAGAGATG
36680291 GATC
66 GATC
*
36680295 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCACCACCTCC
1 ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCC
36680343 AAACATCATT
Statistics
Matches: 237, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 237 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (69 bp):
ATCGTCATCTTCTCAAGTTCCTTCTTCGAATCCAATGCCGCCACCTCCGAATGTCGTTAGAGATG
GATC
Found at i:36680378 original size:12 final size:12
Alignment explanation
Indices: 36680361--36680388 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36680351 TTATTTATGG
36680361 ATCACCACCACC
1 ATCACCACCACC
36680373 ATCACCACCACC
1 ATCACCACCACC
36680385 ATCA
1 ATCA
36680389 TCATCTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.54, G:0.00, T:0.11
Consensus pattern (12 bp):
ATCACCACCACC
Found at i:36680466 original size:66 final size:66
Alignment explanation
Indices: 36680384--36680789 Score: 262
Period size: 66 Copynumber: 6.0 Consensus size: 66
36680374 TCACCACCAC
* * *
36680384 CATCATCATC-TCCTCAAGTTCCTCCTTGGTTTCAAATGCTGCCGCCTCGAAACGTCGGATCATC
1 CATCATCATCAT-CTCAAGTTCCTTCTTGGTTTCAAATGCTGCCACCTCGAAATGTCGGATCATC
36680448 AT
65 AT
* * *
36680450 CATCA-CTATCATCTCAAGTTCCTTCTTGGTTTCGAATG-TCGCCACCCCGAAATGTCGCATCAT
1 CATCATC-ATCATCTCAAGTTCCTTCTTGGTTTCAAATGCT-GCCACCTCGAAATGTCGGATCAT
*
36680513 CTT
64 CAT
* * * *
36680516 CGTCATCATCATCTCAAGTTCCTTCTTGGTTACAAATGCCT-CCAACTCCAAATGTCGGATCATC
1 CATCATCATCATCTCAAGTTCCTTCTTGGTTTCAAATG-CTGCCACCTCGAAATGTCGGATCATC
36680580 AT
65 AT
* * * * ** * * * * *
36680582 CATCATGGTCGTCGTCATCTCAAATTCTTTCTTCGAATCTATTGCCGCCACTTCCAAATGTCGGA
1 CATCA------TCATCATCTCAAGTTCCTTCTTGGTTTCAAATGCTGCCACCTCGAAATGTCGGA
36680647 TCATCATCGT
60 TCATCA---T
* * * * ** * ** *
36680657 CGTCGTCATCATCTCAAGTTCCTTCATCGAATCTAATGCCACCACCTCCAAATGTCGGATCATCA
1 CATCATCATCATCTCAAGTTCCTTCTTGGTTTCAAATGCTGCCACCTCGAAATGTCGGATCATCA
36680722 T
66 T
* * * * ** * * * *
36680723 CATCGCCGTCGTCATCTCAAGTTCCTTCATCGAATCTAATGCCGCCACCTCCAAATGTTGGATCA
1 CAT---CATCATCATCTCAAGTTCCTTCTTGGTTTCAAATGCTGCCACCTCGAAATGTCGGATCA
36680788 TC
63 TC
36680790 GTTGTCGTCG
Statistics
Matches: 280, Mismatches: 41, Indels: 35
0.79 0.12 0.10
Matches are distributed among these distances:
65 2 0.01
66 113 0.40
67 2 0.01
68 1 0.00
69 111 0.40
71 1 0.00
72 46 0.16
75 4 0.01
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (66 bp):
CATCATCATCATCTCAAGTTCCTTCTTGGTTTCAAATGCTGCCACCTCGAAATGTCGGATCATCA
T
Found at i:36680687 original size:69 final size:69
Alignment explanation
Indices: 36680418--36680805 Score: 378
Period size: 69 Copynumber: 5.7 Consensus size: 69
36680408 CTTGGTTTCA
* * * * * * * *
36680418 AATGCTGCCGCCTCGAAACGTCGGATCATCATCATC-AC-T-ATCATCTCAAGTTCCTTCTTGGT
1 AATGCCGCCACCTCCAAATGTCGGATCATCATCATCGTCGTCATCATCTCAAGTTCCTTCATCGA
* *
36680480 TTCG
66 ATCT
* * * *
36680484 AATGTCGCCACC-CCGAAATGTC-G--CATCATCTTCGTCATCATCATCTCAAGTTCCTTC-TTG
1 AATGCCGCCACCTCC-AAATGTCGGATCATCATCATCGTCGTCATCATCTCAAGTTCCTTCATCG
** *
36680544 GTTACA
65 AAT-CT
* * * * * *
36680550 AATGCCTCCAACTCCAAATGTCGGATCATCATCATCATGGTCGTCGTCATCTCAAATTCTTTCTT
1 AATGCCGCCACCTCCAAATGTCGGATCATCATCATC---GTCGTCATCATCTCAAGTTCCTTCAT
36680615 CGAATCT
63 CGAATCT
* * *
36680622 ATTGCCGCCACTTCCAAATGTCGGATCATCATCGTCGTCGTCATCATCTCAAGTTCCTTCATCGA
1 AATGCCGCCACCTCCAAATGTCGGATCATCATCATCGTCGTCATCATCTCAAGTTCCTTCATCGA
36680687 ATCT
66 ATCT
* * *
36680691 AATGCCACCACCTCCAAATGTCGGATCATCATCATCGCCGTCGTCATCTCAAGTTCCTTCATCGA
1 AATGCCGCCACCTCCAAATGTCGGATCATCATCATCGTCGTCATCATCTCAAGTTCCTTCATCGA
36680756 ATCT
66 ATCT
* * **
36680760 AATGCCGCCACCTCCAAATGTTGGATCATCGTTGTCGTCGTCATCA
1 AATGCCGCCACCTCCAAATGTCGGATCATCATCATCGTCGTCATCA
36680806 ACATTGTCAT
Statistics
Matches: 265, Mismatches: 44, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
63 9 0.03
64 1 0.00
65 7 0.03
66 50 0.19
67 3 0.01
69 140 0.53
72 52 0.20
73 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (69 bp):
AATGCCGCCACCTCCAAATGTCGGATCATCATCATCGTCGTCATCATCTCAAGTTCCTTCATCGA
ATCT
Found at i:36680797 original size:138 final size:137
Alignment explanation
Indices: 36680428--36680805 Score: 419
Period size: 138 Copynumber: 2.8 Consensus size: 137
36680418 AATGCTGCCG
* * * * ** * *
36680428 CCTCGAAACGTCGGATCATCATCATC-AC-T-ATCATCTCAAGTTCCTTCTTGGTTTCGAATGTC
1 CCTCCAAATGTCGGATCATCATCATCGACGTCGTCATCTCAAGTTCCTTCTTCGAATCTAATGCC
* * * **
36680490 GCCACC-CCGAAATGTCGCATCATC-T-TCGTCATCATCATCTCAAGTTCCTTCTTGGTTACAAA
66 GCCACCTCC-AAATGTCGGATCATCTTGTCGTCGTCATCATCTCAAGTTCCTTCTCGAATACAAA
*
36680552 TGCCTCCA
130 TGCCACCA
* * * * *
36680560 ACTCCAAATGTCGGATCATCATCATCATGGTCGTCGTCATCTCAAATTCTTTCTTCGAATCTATT
1 CCTCCAAATGTCGGATCATCATCATC---GACGTCGTCATCTCAAGTTCCTTCTTCGAATCTAAT
* *
36680625 GCCGCCACTTCCAAATGTCGGATCATCATCGTCGTCGTCATCATCTCAAGTTCCTTCATCGAAT-
63 GCCGCCACCTCCAAATGTCGGATCATC-TTGTCGTCGTCATCATCTCAAGTTCCTTC-TCGAATA
*
36680689 CTAATGCCACCA
126 CAAATGCCACCA
* *
36680701 CCTCCAAATGTCGGATCATCATCATCGCCGTCGTCATCTCAAGTTCCTTCATCGAATCTAATGCC
1 CCTCCAAATGTCGGATCATCATCATCGACGTCGTCATCTCAAGTTCCTTCTTCGAATCTAATGCC
*
36680766 GCCACCTCCAAATGTTGGATCATCGTTGTCGTCGTCATCA
66 GCCACCTCCAAATGTCGGATCATC-TTGTCGTCGTCATCA
36680806 ACATTGTCAT
Statistics
Matches: 203, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
132 23 0.11
136 1 0.00
137 1 0.00
138 113 0.56
139 2 0.01
141 60 0.30
142 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (137 bp):
CCTCCAAATGTCGGATCATCATCATCGACGTCGTCATCTCAAGTTCCTTCTTCGAATCTAATGCC
GCCACCTCCAAATGTCGGATCATCTTGTCGTCGTCATCATCTCAAGTTCCTTCTCGAATACAAAT
GCCACCA
Found at i:36680992 original size:12 final size:12
Alignment explanation
Indices: 36680933--36680993 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 12
36680923 TCGTCGTCGT
*
36680933 CGTCATCACCAT
1 CGTCATCACCAC
*
36680945 TGTCATCACCAC
1 CGTCATCACCAC
**
36680957 CGTTGTCACCAC
1 CGTCATCACCAC
*
36680969 CATCATCACCAC
1 CGTCATCACCAC
*
36680981 TGTCATCACCAC
1 CGTCATCACCAC
36680993 C
1 C
36680994 ATCGTCATCG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.25, C:0.44, G:0.08, T:0.23
Consensus pattern (12 bp):
CGTCATCACCAC
Found at i:36681298 original size:2 final size:2
Alignment explanation
Indices: 36681291--36681349 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
36681281 GCGTATCAAA
*
36681291 TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36681333 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
36681350 ATATATATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Done.